Novel compositions, methods and kits for urinary tract microorganism detection

Abstract

Various methods are disclosed for amplifying nucleic acid sequences in a nucleic acid sample. The methods involve forming at least five amplification reaction mixes each including an aliquot from a sample source that includes nucleic acid sequences, using at least five different assays each including a pair of amplification primers, the assays selected from the group of assays in Table 1 and/or targeting the sequences specified in Table 1.

1 . A method for amplifying at least one target nucleic acid in a biological sample, the method comprising:
 forming one or more amplification reaction mixes, each amplification reaction mix comprising: a biological sample and a nucleic acid primer with a target hybridization region; and   subjecting each amplification reaction mix to conditions suitable for the target hybridization region to hybridize to at least a portion of a region of SEQ ID NOs: 1 to 19.   
     
     
         2 . The method of  claim 1  further comprising the step of applying each amplification reaction mix to a reaction vessel. 
     
     
         3 . The method of  claim 2 , wherein the reaction vessel is a plate with a plurality of wells. 
     
     
         4 . The method of  claim 2 , wherein the reaction vessel is an array. 
     
     
         5 . The method of  claim 2 , wherein the reaction vessel is an open array plate. 
     
     
         6 . The method of  claim 2 , wherein the reaction vessel is a chip microarray. 
     
     
         7 - 54 . (canceled) 
     
     
         55 . A composition for detecting the presence of of at least one target nucleic acid in a biological sample, the composition comprising:
 one or more nucleic acid primers, wherein each of said one or more nucleic acid primers comprises a target hybridization region that is configured to specifically hybridize to at least a portion of a region of SEQ ID NOs: 1 to 19.   
     
     
         56 . The composition of  claim 55 , further comprising a control nucleic acid molecule comprising a plurality of different nucleic acid target sequences, said plurality of target nucleic acid sequences being specific to at least five genes in Table 1. 
     
     
         57 . The composition of  claim 55 , wherein the composition is a panel or a collection of assays. 
     
     
         58 . The composition of  claim 57 , wherein the panel or collection of assays comprise a panel or collection of TaqMan Assays. 
     
     
         59 . The composition of  claim 55 , wherein the at least one target nucleic acid is a biomarker for a microbe associated with a urinary tract infection. 
     
     
         60 . The composition of  claim 55 , wherein the composition comprises a solid support. 
     
     
         61 . The composition of  claim 60 , wherein two or more nucleic acid primers are separated by location on the solid support. 
     
     
         62 - 287 . (canceled)